A Commodore, N Mukherjee, D Chung, E Svendsen, J Vena, J Pearce, J Roberts, S H Arshad, W Karmaus
{"title":"Erratum: Frequency of heavy vehicle traffic and association with DNA methylation at age 18 years in a subset of the Isle of Wight birth cohort.","authors":"A Commodore, N Mukherjee, D Chung, E Svendsen, J Vena, J Pearce, J Roberts, S H Arshad, W Karmaus","doi":"10.1093/eep/dvz003","DOIUrl":"https://doi.org/10.1093/eep/dvz003","url":null,"abstract":"<p><p>[This corrects the article DOI: 10.1093/eep/dvy028.][This corrects the article DOI: 10.1093/eep/dvy028.].</p>","PeriodicalId":11774,"journal":{"name":"Environmental Epigenetics","volume":"5 1","pages":"dvz003"},"PeriodicalIF":3.8,"publicationDate":"2019-03-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/eep/dvz003","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"37090147","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Yue Wu, Brisa N Sánchez, Jaclyn M Goodrich, Dana C Dolinoy, Alejandra Cantoral, Adriana Mercado-Garcia, Edward A Ruiz-Narváez, Martha M Téllez-Rojo, Karen E Peterson
{"title":"Dietary exposures, epigenetics and pubertal tempo.","authors":"Yue Wu, Brisa N Sánchez, Jaclyn M Goodrich, Dana C Dolinoy, Alejandra Cantoral, Adriana Mercado-Garcia, Edward A Ruiz-Narváez, Martha M Téllez-Rojo, Karen E Peterson","doi":"10.1093/eep/dvz002","DOIUrl":"10.1093/eep/dvz002","url":null,"abstract":"<p><p>Gene expression changes mediated by DNA methylation may play a role in pubertal tempo regulation, and availability of methyl donor nutrients affects these pathways. We examined first trimester maternal and adolescent diet patterns that may be associated with DNA methylation at long interspersed nucleotide (LINE-1) repetitive elements in adolescence using least absolute shrinkage and selection operator (LASSO) and calculated an 'Epigenetics-Associated Diet Score' (EADS) for each pattern; then tested the associations of these scores with pubertal tempo among adolescent boys and girls. The analytic sample included 118 boys and 132 girls aged 10-18 years. DNA methylation at LINE-1 repetitive elements was quantified. Typical maternal and adolescent nutrient intakes were estimated using food frequency questionnaires. Interval-censored time to event and ordinal regression models were used to examine associations EADS scores with pubertal tempo using physician-assessed Tanner stages and self-reported menarche, respectively, adjusted for confounders. We observed associations between maternal EADS and pubertal onset, but not pubertal progression. Each standard deviation (SD) greater maternal EADS was associated with 52% higher odds of having later onset of menarche in both cross-sectional and prospective analysis (<i>P</i> = 0.031 and 0.028, respectively). In contrast, we observed associations between adolescent EADS and pubertal progression, but not pubertal onset. Among boys, for each SD higher adolescent EADS, there was 13% increase in odds of slower genital progression (<i>P</i> = 0.050), as well as 26 and 27% increase in odds of slower left and right testicular development, respectively (<i>P</i> = 0.001). Epigenetic-associated diet influences pubertal tempo in a sex- and timing-specific manner.</p>","PeriodicalId":11774,"journal":{"name":"Environmental Epigenetics","volume":"5 1","pages":"dvz002"},"PeriodicalIF":4.8,"publicationDate":"2019-03-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://ftp.ncbi.nlm.nih.gov/pub/pmc/oa_pdf/67/84/dvz002.PMC6404688.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"37048168","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Meeting Announcement: 2nd Symposium 'Epigenetic Inheritance: Impact for Biology and Society' 26-28 August 2019, ETH Zurich, Switzerland.","authors":"Isabelle M Mansuy","doi":"10.1093/eep/dvz001","DOIUrl":"https://doi.org/10.1093/eep/dvz001","url":null,"abstract":"","PeriodicalId":11774,"journal":{"name":"Environmental Epigenetics","volume":"4 4","pages":"dvz001"},"PeriodicalIF":3.8,"publicationDate":"2019-02-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/eep/dvz001","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"36975973","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
A Commodore, N Mukherjee, D Chung, E Svendsen, J Vena, J Pearce, J Roberts, S H Arshad, W Karmaus
{"title":"Frequency of heavy vehicle traffic and association with DNA methylation at age 18 years in a subset of the Isle of Wight birth cohort.","authors":"A Commodore, N Mukherjee, D Chung, E Svendsen, J Vena, J Pearce, J Roberts, S H Arshad, W Karmaus","doi":"10.1093/eep/dvy028","DOIUrl":"10.1093/eep/dvy028","url":null,"abstract":"<p><p>Assessment of changes in DNA methylation (DNA-m) has the potential to identify adverse environmental exposures. To examine DNA-m among a subset of participants (<i>n</i> = 369) in the Isle of Wight birth cohort who reported variable near resident traffic frequencies. We used self-reported frequencies of heavy vehicles passing by the homes of study subjects as a proxy measure for TRAP, which were: never, seldom, 10 per day, 1-9 per hour and >10 per hour. Methylation of cytosine-phosphate-guanine (CpG) dinucleotide sequences in the DNA was assessed from blood samples collected at age 18 years (<i>n</i> = 369) in the F1 generation. We conducted an epigenome wide association study to examine CpGs related to the frequency of heavy vehicles passing by subjects' homes, and employed multiple linear regression models to assess potential associations. We repeated some of these analysis in the F2 generation (<i>n</i> = 140). Thirty-five CpG sites were associated with heavy vehicular traffic. After adjusting for confounders, we found 23 CpGs that were more methylated, and 11 CpGs that were less methylated with increasing heavy vehicular traffic frequency among all subjects. In the F2 generation, 2 of 31 CpGs were associated with traffic frequencies and the direction of the effect was the same as in the F1 subset while differential methylation of 7 of 31 CpG sites correlated with gene expression. Our findings reveal differences in DNA-m in participants who reported higher heavy vehicular traffic frequencies when compared to participants who reported lower frequencies.</p>","PeriodicalId":11774,"journal":{"name":"Environmental Epigenetics","volume":"4 4","pages":"dvy028"},"PeriodicalIF":3.8,"publicationDate":"2019-01-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/eep/dvy028","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"36910466","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Eleanor J Su-Keene, Melvin M Bonilla, Michael V Padua, David W Zeh, Jeanne A Zeh
{"title":"Simulated climate warming and mitochondrial haplogroup modulate testicular small non-coding RNA expression in the neotropical pseudoscorpion, <i>Cordylochernes scorpioides</i>.","authors":"Eleanor J Su-Keene, Melvin M Bonilla, Michael V Padua, David W Zeh, Jeanne A Zeh","doi":"10.1093/eep/dvy027","DOIUrl":"10.1093/eep/dvy027","url":null,"abstract":"<p><p>Recent theory suggests that tropical terrestrial arthropods are at significant risk from climate warming. Metabolic rate in such ectothermic species increases exponentially with environmental temperature, and a small temperature increase in a hot environment can therefore have a greater physiological impact than a large temperature increase in a cool environment. In two recent studies of the neotropical pseudoscorpion, <i>Cordylochernes scorpioides</i>, simulated climate warming significantly decreased survival, body size and level of sexual dimorphism. However, these effects were minor compared with catastrophic consequences for male fertility and female fecundity, identifying reproduction as the life stage most vulnerable to climate warming. Here, we examine the effects of chronic high-temperature exposure on epigenetic regulation in <i>C. scorpioides</i> in the context of naturally occurring variation in mitochondrial DNA. Epigenetic mechanisms, including DNA methylation, histone modifications and small non-coding RNA (sncRNA) expression, are particularly sensitive to environmental factors such as temperature, which can induce changes in epigenetic states and phenotypes that may be heritable across generations. Our results indicate that exposure of male pseudoscorpions to elevated temperature significantly altered the expression of >60 sncRNAs in testicular tissue, specifically microRNAs and piwi-interacting RNAs. Mitochondrial haplogroup was also a significant factor influencing both sncRNAs and mitochondrial gene expression. These findings demonstrate that chronic heat stress causes changes in epigenetic profiles that may account for reproductive dysfunction in <i>C. scorpioides</i> males. Moreover, through its effects on epigenetic regulation, mitochondrial DNA polymorphism may provide the potential for an adaptive evolutionary response to climate warming.</p>","PeriodicalId":11774,"journal":{"name":"Environmental Epigenetics","volume":"4 4","pages":"dvy027"},"PeriodicalIF":3.8,"publicationDate":"2018-12-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/eep/dvy027","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"36812425","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Adele M H Seelke, Jessica M Bond, Trent C Simmons, Nikhil Joshi, Matthew L Settles, Danielle Stolzenberg, Mijke Rhemtulla, Karen L Bales
{"title":"Fatherhood alters gene expression within the MPOA.","authors":"Adele M H Seelke, Jessica M Bond, Trent C Simmons, Nikhil Joshi, Matthew L Settles, Danielle Stolzenberg, Mijke Rhemtulla, Karen L Bales","doi":"10.1093/eep/dvy026","DOIUrl":"10.1093/eep/dvy026","url":null,"abstract":"<p><p>Female parenting is obligate in mammals, but fathering behavior among mammals is rare. Only 3-5% of mammalian species exhibit biparental care, including humans, and mechanisms of fathering behavior remain sparsely studied. However, in species where it does exist, paternal care is often crucial to the survivorship of offspring. The present study is the first to identify new gene targets linked to the experience of fathering behavior in a biparental species using RNA sequencing. In order to determine the pattern of gene expression within the medial preoptic area that is specifically associated with fathering behavior, we identified genes in male prairie voles (<i>Microtus ochrogaster)</i> that experienced one of three social conditions: virgin males, pair bonded males, and males with fathering experience. A list of genes exhibiting different expression patterns in each comparison (i.e. Virgin vs Paired, Virgin vs Fathers, and Paired vs Fathers) was evaluated using the gene ontology enrichment analysis, and Kyoto Encyclopedia of Genes and Genomes pathways analysis to reveal metabolic pathways associated with specific genes. Using these tools, we generated a filtered list of genes that exhibited altered patterns of expression in voles with different amounts of social experience. Finally, we used NanoString to quantify differences in the expression of these selected genes. These genes are involved in a variety of processes, with enrichment in genes associated with immune function, metabolism, synaptic plasticity, and the remodeling of dendritic spines. The identification of these genes and processes will lead to novel insights into the biological basis of fathering behavior.</p>","PeriodicalId":11774,"journal":{"name":"Environmental Epigenetics","volume":"4 4","pages":"dvy026"},"PeriodicalIF":3.8,"publicationDate":"2018-12-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6305489/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"36842111","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Effect of a locally adapted genome on environmentally induced epigenetic variation.","authors":"France Beauregard, Bernard Angers","doi":"10.1093/eep/dvy025","DOIUrl":"https://doi.org/10.1093/eep/dvy025","url":null,"abstract":"<p><p>Both genetic variation and environmentally induced epigenetic changes allow organisms to persist through the heterogeneity of their habitats. Selection on genetic variation can promote local adaptation of populations. However, in absence of genetic variation, clonal organisms mostly rely on epigenetics to respond to environmental heterogeneity. We used the potential of unisexual organisms in incorporating their host genome, to empirically assess whether the presence of a locally adapted genome affects environmentally induced epigenetic changes in clonal organisms. We addressed this problematic by using unisexual lineages of the kleptogen vertebrate <i>Ambystoma laterale-jeffersonianum</i> complex that can optionally incorporate genetic material from locally adapted sexual hosts through genomic exchanges. More specifically, we compared environmentally induced epigenetic changes between lineages strictly reproducing clonally vs. those incorporating a locally adapted genome. The results revealed that both lineage and sample site components, as well as their interaction, affected epigenetic variation. When lineages were analysed separately, differences among sample sites were only detected in lineages impervious to genomic exchanges. Sample sites had no significant effect on the epigenetic variation of lineages that performed genomic exchanges. These results suggest that environmentally induced epigenetic variation among sites depends more on the lack of locally adapted alleles than on the level of genetic variation.</p>","PeriodicalId":11774,"journal":{"name":"Environmental Epigenetics","volume":"4 4","pages":"dvy025"},"PeriodicalIF":3.8,"publicationDate":"2018-11-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/eep/dvy025","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"36788494","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Gretchen van Steenwyk, Martin Roszkowski, Francesca Manuella, Tamara B Franklin, Isabelle M Mansuy
{"title":"Transgenerational inheritance of behavioral and metabolic effects of paternal exposure to traumatic stress in early postnatal life: evidence in the 4th generation.","authors":"Gretchen van Steenwyk, Martin Roszkowski, Francesca Manuella, Tamara B Franklin, Isabelle M Mansuy","doi":"10.1093/eep/dvy023","DOIUrl":"https://doi.org/10.1093/eep/dvy023","url":null,"abstract":"Abstract In the past decades, evidence supporting the transmission of acquired traits across generations has reshaped the field of genetics and the understanding of disease susceptibility. In humans, pioneer studies showed that exposure to famine, endocrine disruptors or trauma can affect descendants, and has led to a paradigm shift in thinking about heredity. Studies in humans have however been limited by the low number of successive generations, the different conditions that can be examined, and the lack of mechanistic insight they can provide. Animal models have been instrumental to circumvent these limitations and allowed studies on the mechanisms of inheritance of environmentally induced traits across generations in controlled and reproducible settings. However, most models available today are only intergenerational and do not demonstrate transmission beyond the direct offspring of exposed individuals. Here, we report transgenerational transmission of behavioral and metabolic phenotypes up to the 4th generation in a mouse model of paternal postnatal trauma (MSUS). Based on large animal numbers (up to 124 per group) from several independent breedings conducted 10 years apart by different experimenters, we show that depressive-like behaviors are transmitted to the offspring until the third generation, and risk-taking and glucose dysregulation until the fourth generation via males. The symptoms are consistent and reproducible, and persist with similar severity across generations. These results provide strong evidence that adverse conditions in early postnatal life can have transgenerational effects, and highlight the validity of MSUS as a solid model of transgenerational epigenetic inheritance.","PeriodicalId":11774,"journal":{"name":"Environmental Epigenetics","volume":"4 2","pages":"dvy023"},"PeriodicalIF":3.8,"publicationDate":"2018-10-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/eep/dvy023","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"36608792","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Impacts of bisphenol A (BPA) and phthalate exposures on epigenetic outcomes in the human placenta.","authors":"Rita S Strakovsky, Susan L Schantz","doi":"10.1093/eep/dvy022","DOIUrl":"https://doi.org/10.1093/eep/dvy022","url":null,"abstract":"<p><p>The placenta guides fetal growth and development. Bisphenol A (BPA) and phthalates are widespread environmental contaminants and endocrine disruptors, and the placental epigenetic response to these chemicals is an area of growing research interest. Therefore, our objective was to summarize research linking BPA or phthalate exposure to placental outcomes in human pregnancies, with a particular focus on epigenetic endpoints. In PubMed, studies were selected for review (without limiting start date and ending on 1 May 2018) if they reported any direct effects of BPA or phthalates on the placenta in humans. Collectively, available studies suggest that BPA and phthalate exposures are associated with changes to placental micro-RNA expression, DNA methylation, and genomic imprinting. Furthermore, several studies suggest that fetal sex may be an important modifier of placental outcomes in response to these chemicals. Studies in humans demonstrate associations of BPA and phthalate exposure with adverse placental outcomes. Moving forward, more studies should consider sex differences (termed \"placental sex\") in the measured outcomes, and should utilize appropriate statistical approaches to assess modification by fetal sex. Furthermore, more consistent sample collection and molecular outcome assessment paradigms will be indispensable for making progress in the field. These advances, together with improved non-invasive tools for measuring placental function and outcomes across pregnancy, will be critical for understanding the mechanisms driving placental epigenetic disruption in response to BPA and phthalates, and how these disruptions translate into placental and fetal health.</p>","PeriodicalId":11774,"journal":{"name":"Environmental Epigenetics","volume":"4 3","pages":"dvy022"},"PeriodicalIF":3.8,"publicationDate":"2018-09-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1093/eep/dvy022","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"36487355","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Hiba Zaidan, Gokul Ramaswami, Michal Barak, Jin B Li, Inna Gaisler-Salomon
{"title":"Pre-reproductive stress and fluoxetine treatment in rats affect offspring A-to-I RNA editing, gene expression and social behavior.","authors":"Hiba Zaidan, Gokul Ramaswami, Michal Barak, Jin B Li, Inna Gaisler-Salomon","doi":"10.1093/eep/dvy021","DOIUrl":"10.1093/eep/dvy021","url":null,"abstract":"<p><p>Adenosine to inosine RNA editing is an epigenetic process that entails site-specific modifications in double-stranded RNA molecules, catalyzed by adenosine deaminases acting on RNA (ADARs). Using the multiplex microfluidic PCR and deep sequencing technique, we recently showed that exposing adolescent female rats to chronic unpredictable stress before reproduction affects editing in the prefrontal cortex and amygdala of their newborn offspring, particularly at the serotonin receptor 5-HT2c (encoded by <i>Htr2c)</i>. Here, we used the same technique to determine whether post-stress, pre-reproductive maternal treatment with fluoxetine (5 mg/kg, 7 days) reverses the effects of stress on editing. We also examined the mRNA expression of ADAR enzymes in these regions, and asked whether social behavior in adult offspring would be altered by maternal exposure to stress and/or fluoxetine. Maternal treatment with fluoxetine altered <i>Htr2c</i> editing in offspring amygdala at birth, enhanced the expression of <i>Htr2c</i> mRNA and RNA editing enzymes in the prefrontal cortex, and reversed the effects of pre-reproductive stress on <i>Htr2c</i> editing in this region. Furthermore, maternal fluoxetine treatment enhanced differences in editing of glutamate receptors between offspring of control and stress-exposed rats, and led to enhanced social preference in adult offspring. Our findings indicate that pre-gestational fluoxetine treatment affects patterns of RNA editing and editing enzyme expression in neonatal offspring brain in a region-specific manner, in interaction with pre-reproductive stress. Overall, these findings imply that fluoxetine treatment affects serotonergic signaling in offspring brain even when treatment is discontinued before gestation, and its effects may depend upon prior exposure to stress.</p>","PeriodicalId":11774,"journal":{"name":"Environmental Epigenetics","volume":"4 2","pages":"dvy021"},"PeriodicalIF":4.8,"publicationDate":"2018-08-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://ftp.ncbi.nlm.nih.gov/pub/pmc/oa_pdf/22/95/dvy021.PMC6084559.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"36395082","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}